RetrogeneDB ID: retro_mmul_1395

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 19:22110824..22111473(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: SNX32
• Ensembl ID: ENSMMUG00000019017
• Aliases: None
• Description: None

Sequence

>retro_mmul_1395
AATGTAGATCTTCAAAGTGATCCTCCTCTGCAGGTGGACATCTCTGATGCTCTTAGTGAGTGGGATAAAGTAAAATTCAC
TGTTCACACAAAAAGTTTATTGCCAAATTTTAAACAAAATGAGTTTTCTGTTGTTCAGCAACACAAGCAATTTATCTGGC
ATCACGATTCCTTTGTTATAAATGAAGACTATGCAGGTTACATCATTTCACCAGCACCACCAAGACCTGATTTTGATGCT
TCAAGGGAAAAAGTACAGAAGCTTGCAGAAGAAGGGTCAATGACAAAGGAAGAATTCACAAAGATGAAACAGGAACTGGA
AGCTGAATATTTGGGAATATTCAAGAAGACAGTTGCGATCCATGAAGTGTTCCTATATCATGTGACAGCACATCCTATTT
TGAGAAAATATTTAAATTTCCATGTCTTCTTGCAATATAATCAAGATTTTAGTGTGCGAGGACAAATAAAAAGAGAAACT
TGAAGATTTCTTTAAAAACATGGTTAAATCAGCAGATGGAGTAATTGTTTCAGGAGTAAAGGATGTAGATAATTTATTTG
AACATGAACGAACATTTCTTTTAGAATATCATAATTGAGTTAAGGATGCATCTGTTAACTCTGGTAGAATGACGATCCCA
CAAAAGTGC

Alignment

ORF - retro_mmul_1395 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.13 %
• Parental protein coverage: 83.4 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SVDLQGDSSLQVEISDAVSERDKVKFTVQTKSCLPHFAQTEFSVVRQHEEFIWLHDAYVENEEYAGLIIP
          .VDLQ.D..LQV.ISDA.SE.DKVKFTV.TKS.LP.F.Q.EFSVV.QH..FIW.HD..V.NE.YAG.II.
Retrocopy NVDLQSDPPLQVDISDALSEWDKVKFTVHTKSLLPNFKQNEFSVVQQHKQFIWHHDSFVINEDYAGYIIS

Parental  PAPPRPDFEASREKLQKLGEGDSSVTREEFAKMKQELEAEYLAIFKKTVAMHEVFLQRLAAHPTLRRDHN
          PAPPRPDF.ASREK.QKL.E...S.T.EEF.KMKQELEAEYL.IFKKTVA.HEVFL....AHP.LR...N
Retrocopy PAPPRPDFDASREKVQKLAE-EGSMTKEEFTKMKQELEAEYLGIFKKTVAIHEVFLYHVTAHPILRKYLN

Parental  FFVFLEYGQDLSVRGK-NRK-ELLGGFLRNIVKSADEALITGMSGLKEVDDFFEHERTFLLEYHTRIRDA
          F.VFL.Y.QD.SVRG..N.K.E.L..F..N.VKSAD.......SG.K.VD..FEHERTFLLEYH....DA
Retrocopy FHVFLQYNQDFSVRGQ<NKK<EKLEDFFKNMVKSADGVIV---SGVKDVDNLFEHERTFLLEYHN*VKDA

Parental  CLRADRVMRAHKC
          .....R.....KC
Retrocopy SVNSGRMTIPQKC

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain	0.00 RPM	46.50 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	51.09 RPM
SRP007412_cerebellum	0.00 RPM	32.22 RPM
SRP007412_heart	0.18 RPM	4.89 RPM
SRP007412_kidney	0.00 RPM	8.22 RPM
SRP007412_liver	0.00 RPM	1.15 RPM
SRP007412_testis	0.23 RPM	8.52 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1395 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1395 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1395 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000172803	1 retrocopy	retro_hsap_2045,
Gorilla gorilla	ENSGGOG00000010801	1 retrocopy	retro_ggor_1473,
Macaca mulatta	ENSMMUG00000011476	2 retrocopies	retro_mmul_1746, retro_mmul_832,
Macaca mulatta	ENSMMUG00000019017	1 retrocopy	retro_mmul_1395 ,